A multi -omics system biology approach to identify disease control mechanisms i n HIV-1




Principal Investigator:

Ujjwal Neogi


Karolinska Institutet

Start Date:


End Date:


Primary Classification:

30401: Medical Biotechnology (focus on Cell Biology (incl. Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)


  • Castor /proj at UPPMAX: 1000 GiB
  • Cygnus /proj at UPPMAX: 1000 GiB
  • Castor /proj/nobackup at UPPMAX: 500 GiB
  • Cygnus /proj/nobackup at UPPMAX: 500 GiB
  • Bianca at UPPMAX: 2 x 1000 core-h/month


In absence of antiretroviral therapy (ART) almost all HIV-infected patients will progress to AIDS. However, a rare group, the elite controllers (EC), have a natural ability to control HIV replication in the absence of ART, but the mechanisms by which they achieve this phenotype have not been explored. I hypothesize that differential mechanisms of disease control and heterogeneous host genetic traits are associated with immune control of HIV-1 replication in EC. In my research program, using high throughput genomics, transcriptomics and proteomics (aim 1 and 2) and integrating the multi-omics data (aim 3), I seek to understand the host-specific networks and mechanisms that control HIV-1 replication in EC. We will use longitudinal biobanked plasma, freshly drawn blood and gut biopsies from very well-characterized patient-populations. Finally, in aim 4 we will map the molecular pathways of HIV-1 pathogenesis and its control. targeting the three to four pathways that are identified in aim 1-3. My study will thereby generate a huge knowledge in the field of HIV-1 control. This understanding of the unique gene expression and immunological characteristics of EC will predict a frame of reference for what may be required in clinical intervention strategies to induce immune control of HIV-1 and the future development of functional HIV-cure.